Here we plot the results of the metabolisation assay in liquid cultures of Microbacteria from the maize root bacteria (Thoenen et al. 2023) and the AtSphere collection (Bai et al. 2015). We tested MBOA and DIMBOA-Glc. Additionally we also report growth data of all Microbacteria in MBOA-containing TSB medium to test them for MBOA tolerance and in MBOA-containing minimal medium to test them for using MBOA as sole carbon source for growth.
Quantification & calculations: using a standard curve the samples are quantified
Explore raw data
Stacked Bargraph
Quantification & calculations using a standard curve the samples are quantified
join 11 stds and HMPAA
remove the compounds which are not reliable quantified
Dilutions: 150 + 350 = 500 50 + 700 = 750 500 / 150 = 3.33333 750 / 50 = 15
1/((500/150)*15) = 0.02
for some reason the MBOA concentrations are a bit too high (factor 1.273141 controlled with t0 MBOA sample) –> ev because of precipitaion issue?
Explore raw data
MBOA
| max_MBOA | max_AMPO | max_HMPAA |
|---|---|---|
| 516.2433 | 302.6399 | 44.06674 |
DIMBOA-Glc metabolization
| max_DIMBOA_Glc | max_MBOA | max_AMPO |
|---|---|---|
| 575.2392 | 120.9501 | 7.355668 |
Groups
2nd run was left for 1 cycle longer, therefore the same amount of cycles was kept
To quantify the total bacterial growth over time, we calculate the total area under the curve. This is done with the function “auc()” For comparison between treatments, the total AUC (calculated using density increase) and AUC_raw (calculated using raw density) is normalized with the AUC of the strain grown in the control treatment (no chemicals added, just normal growth media with DMSO).
TSB and Minimal medium
Calculate growth reduction in MM MBOA compared to MM DMSO
Statistics MBOA tolerance in MM
Thresholds for qualitative analysis - weak MBOA-degraders: >30% of MBOA degraded compared to the control) - strong MBOA-degraders: (>90% of MBOA degraded, Fig. 3a). strong AMPO-formers (100 - 10 %) weak AMPO-formers’, <10% of max. AMPO forming strain) (0.01 µM, limit of detection).
Tree with AMPO Phenotype on plates
Tree as above with MBOA metabolites
Tree as above with DIMBOA-Glc metabolites
## R version 4.3.1 (2023-06-16)
## Platform: x86_64-apple-darwin20 (64-bit)
## Running under: macOS Ventura 13.3.1
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## BLAS: /Library/Frameworks/R.framework/Versions/4.3-x86_64/Resources/lib/libRblas.0.dylib
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## attached base packages:
## [1] stats graphics grDevices utils datasets methods base
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